Strain identifier

BacDive ID: 14438

Type strain: Yes

Species: Salinicoccus carnicancri

Strain Designation: Crm

Strain history: <- JW Bae, KRIBB

NCBI tax ID(s): 558170 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 17406

BacDive-ID: 14438

DSM-Number: 23852

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-positive, coccus-shaped

description: Salinicoccus carnicancri Crm is an aerobe, mesophilic, Gram-positive bacterium that was isolated from traditional Korean fermented seafood .

NCBI tax id

  • NCBI tax id: 558170
  • Matching level: species

strain history

@refhistory
17406<- JCM <- J.-W. Bae <- M.-J. Jung, Kyung Hee Univ., Seoul, Republic of Korea
67770J.-W. Bae <-- M.-J. Jung strain Crm.
67771<- JW Bae, KRIBB

doi: 10.13145/bacdive14438.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Staphylococcaceae
  • genus: Salinicoccus
  • species: Salinicoccus carnicancri
  • full scientific name: Salinicoccus carnicancri Jung et al. 2010

@ref: 17406

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Staphylococcaceae

genus: Salinicoccus

species: Salinicoccus carnicancri

full scientific name: Salinicoccus carnicancri Jung et al. 2010

strain designation: Crm

type strain: yes

Morphology

cell morphology

@refgram staincell widthcell shapemotility
29386positive1.75 µmcoccus-shapedno
67771coccus-shapedno
67771positive

pigmentation

  • @ref: 29386
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 17406
  • name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/514
  • composition: Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
17406positivegrowth28mesophilic
29386positivegrowth04-45
29386positiveoptimum33.5mesophilic
67770positivegrowth30mesophilic
67771positivegrowth37mesophilic

culture pH

@refabilitytypepHPH range
29386positivegrowth06-11alkaliphile
29386positiveoptimum7.5

Physiology and metabolism

oxygen tolerance

  • @ref: 67771
  • oxygen tolerance: aerobe

spore formation

@refspore formation
29386no
67771no

halophily

@refsaltgrowthtested relationconcentration
29386NaClpositivegrowth0-20 %
29386NaClpositiveoptimum12 %

observation

@refobservation
29386aggregates in clumps
67770quinones: MK-6
67771quinones: MK-6

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2938621217L-alaninamide+carbon source
2938616449alanine+carbon source
2938628757fructose+carbon source
2938617234glucose+carbon source
2938629987glutamate+carbon source
2938617754glycerol+carbon source
2938624996lactate+carbon source
2938617306maltose+carbon source
2938629864mannitol+carbon source
2938637684mannose+carbon source
2938637657methyl D-glucoside+carbon source
29386506227N-acetylglucosamine+carbon source
2938615361pyruvate+carbon source
2938633942ribose+carbon source
2938617814salicin+carbon source
2938617822serine+carbon source
2938627082trehalose+carbon source

enzymes

@refvalueactivityec
29386acid phosphatase+3.1.3.2
29386alkaline phosphatase+3.1.3.1
29386catalase+1.11.1.6

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic location
17406traditional Korean fermented seafood (crabs)Republic of KoreaKORAsia
67770Crabs preserved in soy sauce, traditional Korean fermented seafoodRepublic of KoreaKORAsia
67771From Korean traditional fermented seafoodRepublic of KoreaKORAsiaganjang-gejang

isolation source categories

Cat1Cat2Cat3
#Engineered#Food production#Seafood
#Engineered#Food production#Fermented

taxonmaps

  • @ref: 69479
  • File name: preview.99_6394.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_1211;97_3724;98_4723;99_6394&stattab=map
  • Last taxonomy: Salinicoccus carnicancri
  • 16S sequence: FJ182049
  • Sequence Identity:
  • Total samples: 372
  • soil counts: 20
  • aquatic counts: 26
  • animal counts: 320
  • plant counts: 6

Safety information

risk assessment

  • @ref: 17406
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 17406
  • description: Salinicoccus carnicancri strain Crm 16S ribosomal RNA gene, partial sequence
  • accession: FJ182049
  • length: 1467
  • database: ena
  • NCBI tax ID: 1235755

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Salinicoccus carnicancri Crm1235755.3wgspatric1235755
66792Salinicoccus carnicancri Crm2521172676draftimg1235755
67770Salinicoccus carnicancri CrmGCA_000330705contigncbi1235755

GC content

@refGC-contentmethod
2938647.8
6777047.93genome sequence analysis
6777047.8thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno88.682yes
gram-positiveyes91.417yes
anaerobicno99.251yes
aerobicyes96.801yes
halophileyes97.404no
spore-formingno87.603yes
thermophileno98.697no
glucose-utilyes88.186no
flagellatedno91.923yes
glucose-fermentno57.592no

External links

@ref: 17406

culture collection no.: DSM 23852, JCM 15796, KCTC 13301

straininfo link

  • @ref: 83582
  • straininfo: 403392

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19656926Salinicoccus carnicancri sp. nov., a halophilic bacterium isolated from a Korean fermented seafood.Jung MJ, Kim MS, Roh SW, Shin KS, Bae JWInt J Syst Evol Microbiol10.1099/ijs.0.012047-02009DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/chemistry/metabolism, *Fermentation, Korea, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Seafood/*microbiology, Sodium Chloride/*metabolism, Staphylococcaceae/classification/genetics/*isolation & purification/*metabolismMetabolism
Genetics23991257Genome sequence of the moderately halophilic bacterium Salinicoccus carnicancri type strain Crm(T) (= DSM 23852(T)).Hyun DW, Whon TW, Cho YJ, Chun J, Kim MS, Jung MJ, Shin NR, Kim JY, Kim PS, Yun JH, Lee J, Oh SJ, Bae JWStand Genomic Sci10.4056/sigs.39676492013

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
17406Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23852)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23852
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
29386Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2579328776041
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
69479João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.https://microbeatlas.org/MicrobeAtlas 1.0 beta
83582Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID403392.1StrainInfo: A central database for resolving microbial strain identifiers